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Tailspike protein mutant E372Q (delta D470/N471) of E. coli bacteriophage HK620
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4XOR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 298 0.1 M Tris-HCl, 3.5 M Sodiumformiate
Crystal Properties Matthews coefficient Solvent content 2.15 42.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.121 α = 90 b = 74.121 β = 90 c = 175.467 γ = 120
Symmetry Space Group P 3 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RAYONIX MX-225 mirrors 2012-11-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.55 43.23 97.4 0.07 0.032 0.999 17.9 5.7 79824
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.55 1.58 88.6 0.741 0.36 0.783 2 4.7 3552
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4XOR 1.55 43.23 79824 3985 97.35 0.1601 0.1586 0.169 0.1892 0.1953 RANDOM 18.113
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.21 0.11 0.21 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.634 r_dihedral_angle_4_deg 18.053 r_dihedral_angle_3_deg 11.502 r_dihedral_angle_1_deg 7.508 r_angle_refined_deg 1.769 r_mcangle_it 1.535 r_mcbond_other 0.989 r_mcbond_it 0.988 r_angle_other_deg 0.898 r_chiral_restr 0.116
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.634 r_dihedral_angle_4_deg 18.053 r_dihedral_angle_3_deg 11.502 r_dihedral_angle_1_deg 7.508 r_angle_refined_deg 1.769 r_mcangle_it 1.535 r_mcbond_other 0.989 r_mcbond_it 0.988 r_angle_other_deg 0.898 r_chiral_restr 0.116 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4518 Nucleic Acid Atoms Solvent Atoms 665 Heterogen Atoms 18
Software Software Software Name Purpose XDS data reduction Aimless data scaling PHASER phasing ARP model building Coot model building REFMAC refinement PDB_EXTRACT data extraction